qtables2: Internal tables function

In benjjneb/dada2: Accurate, high-resolution sample inference from amplicon sequencing data

Internal tables function

Description

Internal function to replicate ShortRead::tables functionality while also returning average quals and a map from reads to uniques

Usage

qtables2(x, qeff = FALSE, handle.zerolen = TRUE)

Arguments

x	ShortReadQ. The ShortReadQ-class object to table (or dereplicate).
qeff	logical(1). Calculate average quality by first transforming to expected error rate.
handle.zerolen	logical(1). Default TRUE. If TRUE, gracefully excludes zero-length sequences.

Value

List. Matches format of derep-class object.

benjjneb/dada2 documentation built on Dec. 5, 2024, 4:02 p.m.